1p79

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(New page: 200px<br /><applet load="1p79" size="450" color="white" frame="true" align="right" spinBox="true" caption="1p79, resolution 1.10&Aring;" /> '''Crystal structure of...)
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[[Image:1p79.gif|left|200px]]<br /><applet load="1p79" size="350" color="white" frame="true" align="right" spinBox="true"
caption="1p79, resolution 1.10&Aring;" />
caption="1p79, resolution 1.10&Aring;" />
'''Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex'''<br />
'''Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex'''<br />
==Overview==
==Overview==
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Bulges are an important structural motif in RNA and can be used as, recognition and interaction sites in RNA-protein interaction and RNA-RNA, interaction. Here we report the first crystal structure of a bulged RNA, tetraplex at 1.1 A resolution. The hexamer r(U)(BrdG)r(UGGU) forms a, parallel tetraplex with the uridine sandwiched by guanines bulging out., The bulged uridine adopts the syn glycosidic conformation and its O2 and, N3 atoms face outwards, serving as an effective recognition and, interaction site. The bulge formation both widens the groove width and, changes the groove hydrogen-bonding pattern on its 5' side. However, the, bulge does not make any bends or kinks in the tetraplex structure. The, present study demonstrates the dramatic difference between uridine and, guanine in forming tetraplex structure. In addition, both G(syn) tetrad, and G(anti) tetrad have been observed. They display the same base-pairing, pattern and similar C1'-C1' distance but different hydrogen-bonding, patterns in the groove.
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Bulges are an important structural motif in RNA and can be used as recognition and interaction sites in RNA-protein interaction and RNA-RNA interaction. Here we report the first crystal structure of a bulged RNA tetraplex at 1.1 A resolution. The hexamer r(U)(BrdG)r(UGGU) forms a parallel tetraplex with the uridine sandwiched by guanines bulging out. The bulged uridine adopts the syn glycosidic conformation and its O2 and N3 atoms face outwards, serving as an effective recognition and interaction site. The bulge formation both widens the groove width and changes the groove hydrogen-bonding pattern on its 5' side. However, the bulge does not make any bends or kinks in the tetraplex structure. The present study demonstrates the dramatic difference between uridine and guanine in forming tetraplex structure. In addition, both G(syn) tetrad and G(anti) tetrad have been observed. They display the same base-pairing pattern and similar C1'-C1' distance but different hydrogen-bonding patterns in the groove.
==About this Structure==
==About this Structure==
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1P79 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with K as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1P79 OCA].
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1P79 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=K:'>K</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P79 OCA].
==Reference==
==Reference==
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[[Category: tetraplex]]
[[Category: tetraplex]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:06:52 2007''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:25:52 2008''

Revision as of 12:25, 21 February 2008

Image:1p79.gif

1p79, resolution 1.10Å

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Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex

Overview

Bulges are an important structural motif in RNA and can be used as recognition and interaction sites in RNA-protein interaction and RNA-RNA interaction. Here we report the first crystal structure of a bulged RNA tetraplex at 1.1 A resolution. The hexamer r(U)(BrdG)r(UGGU) forms a parallel tetraplex with the uridine sandwiched by guanines bulging out. The bulged uridine adopts the syn glycosidic conformation and its O2 and N3 atoms face outwards, serving as an effective recognition and interaction site. The bulge formation both widens the groove width and changes the groove hydrogen-bonding pattern on its 5' side. However, the bulge does not make any bends or kinks in the tetraplex structure. The present study demonstrates the dramatic difference between uridine and guanine in forming tetraplex structure. In addition, both G(syn) tetrad and G(anti) tetrad have been observed. They display the same base-pairing pattern and similar C1'-C1' distance but different hydrogen-bonding patterns in the groove.

About this Structure

1P79 is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.

Reference

Crystal structure of a bulged RNA tetraplex at 1.1 a resolution: implications for a novel binding site in RNA tetraplex., Pan B, Xiong Y, Shi K, Sundaralingam M, Structure. 2003 Nov;11(11):1423-30. PMID:14604532

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